You learn the basics of electronics, circuits, and signals in CE, and you won’t be strictly at a disadvantage (at least not for the kinds of jobs you seem to be looking for). EEs tend to specialize, and you can simply think of it as specializing in software rather than in any of the other things that an EE might have chosen to specialize in.
No matter which path you choose, you won’t be able to learn everything in four or five years of schooling. Any way you go about it, there is more learning to be done in the future. Cover as many fundamentals as you can now so that you’re ready to learn on your own when you have to.